Locus 326

Sequence ID 2R_DroMel_CAF1
Location 2,133,788 – 2,133,882
Length 94
Max. P 0.631975
window664 window665

overview

Window 4

Location 2,133,788 – 2,133,882
Length 94
Sequences 3
Columns 111
Reading direction forward
Mean pairwise identity 72.67
Mean single sequence MFE -26.35
Consensus MFE -14.86
Energy contribution -18.70
Covariance contribution 3.84
Combinations/Pair 1.09
Mean z-score -1.63
Structure conservation index 0.56
SVM decision value 0.11
SVM RNA-class probability 0.586673
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 2133788 94 + 20766785
CGAAUUGGAGCCGUUCAUGCUCAAAAGGAGCGUCUAAUUACACCCCGUUU-GUUGGCAUUCGAA----AACUCGUUUCAAAAA------------AACAAAAUUGUGGAAG
..(((((((..(((((...........)))))))))))).(((....(((-(((......(((.----...))).........------------))))))...))).... ( -15.56)
>DroSec_CAF1 112489 111 + 1
GGAAUUAGAGCUGUUCUUGCUCAAAAGGACCGUUUAAUUACACCCCAUUUUUUUGAUAUUCGAUUCGCUAGUCGAUUUAGUCGAUUUGGUCCUUUGACUAAAUCGUUGGGG
..(((((((.(.((((((......)))))).))))))))...(((((.......(((..(((((......)))))....)))(((((((((....)))))))))..))))) ( -32.70)
>DroSim_CAF1 116439 111 + 1
UGAAUUGGAACCGUUCUUGCUCAAAAGGACCGUUUAAUUACACCCCAUUUUUUUGAUAUUCGAUUCGCUAGUCGAUUUAGUCGAAUUAGUCCUUUGACUAAAUCUUUGGGG
(((((((.(((.((((((......)))))).)))))))).))(((((..............(((......)))((((((((((((.......))))))))))))..))))) ( -30.80)
>consensus
CGAAUUGGAGCCGUUCUUGCUCAAAAGGACCGUUUAAUUACACCCCAUUUUUUUGAUAUUCGAUUCGCUAGUCGAUUUAGUCGA_UU_GUCCUUUGACUAAAUCGUUGGGG
..(((((((.(.((((((......)))))).))))))))...((((...............(((......)))((((((((((((.......))))))))))))...)))) (-14.86 = -18.70 +   3.84) 

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 5

Location 2,133,788 – 2,133,882
Length 94
Sequences 3
Columns 111
Reading direction reverse
Mean pairwise identity 72.67
Mean single sequence MFE -23.07
Consensus MFE -14.28
Energy contribution -15.62
Covariance contribution 1.34
Combinations/Pair 1.12
Mean z-score -1.42
Structure conservation index 0.62
SVM decision value 0.20
SVM RNA-class probability 0.631975
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 2133788 94 - 20766785
CUUCCACAAUUUUGUU------------UUUUUGAAACGAGUU----UUCGAAUGCCAAC-AAACGGGGUGUAAUUAGACGCUCCUUUUGAGCAUGAACGGCUCCAAUUCG
................------------.....(((..(((((----(((..((((...(-(((.(((((((......))))))).)))).))))))).)))))...))). ( -21.20)
>DroSec_CAF1 112489 111 - 1
CCCCAACGAUUUAGUCAAAGGACCAAAUCGACUAAAUCGACUAGCGAAUCGAAUAUCAAAAAAAUGGGGUGUAAUUAAACGGUCCUUUUGAGCAAGAACAGCUCUAAUUCC
(((((.((((((((((.............))))))))))......((........)).......)))))...........((.......((((.......)))).....)) ( -24.52)
>DroSim_CAF1 116439 111 - 1
CCCCAAAGAUUUAGUCAAAGGACUAAUUCGACUAAAUCGACUAGCGAAUCGAAUAUCAAAAAAAUGGGGUGUAAUUAAACGGUCCUUUUGAGCAAGAACGGUUCCAAUUCA
.......(((((((((.((.......)).))))))))).....(.((((((....((((((....(((.(((......))).))))))))).......)))))))...... ( -23.50)
>consensus
CCCCAACGAUUUAGUCAAAGGAC_AA_UCGACUAAAUCGACUAGCGAAUCGAAUAUCAAAAAAAUGGGGUGUAAUUAAACGGUCCUUUUGAGCAAGAACGGCUCCAAUUCA
......((((((((((.............))))))))))...........((((...........(((.(((......))).)))....((((.......))))..)))). (-14.28 = -15.62 +   1.34) 

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript


Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:35:38 2006